Vimac Nolla

Hi, The easiest way to update the databases is to directly run the first module of the pipeline, "Update databases". This will update the provided databases (see "Update databases" pipeline module wiki). I hope this helps. Vimac

Hi, I managed to fix the problem. It seems like java was unable to find the /jni and /current directories in usr/local/bin. So I just copied the two directories from my BBMap folder to usr/local/bin and it worked. Vimac

Hi Marc, I'm running Metawatt 3.5.3 and even though the pipeline seems to work fine, it ends with two issues: The generated bins have an "Infinity" abundance. The BBMap seems not to work even though the dependencies check is ok for BBMap. I've checked the logbook and the only errors I could find are related to align2.BBMap: Metawatt [INFO|4:43:52] Running "Map reads to contigs"... Metawatt [INFO|4:43:52] Map faster [true] Metawatt [INFO|4:43:52] Minimum Percent ID [98.0] Metawatt [INFO|4:43:52] Contig...

Hi Marc, So installing an older version on Diamond, v0.8.0 did the trick :) Vimac

Hi Marc, Currently I'm using diamond 0.9.9 which should be ok according to the wiki. I will try with an older version to see if there is some issue with v0.9.9. Vimac

Dear Marc, I'm tryning to run the latest version of metawatt 3.5.3 and I have some errors while running Diamond. I'm running it on a Ubuntu 14 with Biolinux8 and 32GB of RAM The depenencies test gives Ok for all of them including Diamond and if I perform the runn everything seems ok, I obtain multiple bins, however the bins do not contain any taxonomic information. Looking at the logbook I see the following isues: The first module "Update databases" does not produce the "reference-genomes.faa.dmnd"....

Thanks!

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